miRNA display CGI


Results 1 - 20 of 39 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
26726 3' -54.1 NC_005808.1 + 327 0.66 0.748124
Target:  5'- aCCgucaGGCuGGCGGUGGcgUCGcgcAGcaGGCCg -3'
miRNA:   3'- -GGag--CCG-CUGCUACCuaAGU---UC--CCGG- -5'
26726 3' -54.1 NC_005808.1 + 633 0.73 0.345082
Target:  5'- gCCUCGGCG-CGGgugaacGGGUcaggCGGGGGCUu -3'
miRNA:   3'- -GGAGCCGCuGCUa-----CCUAa---GUUCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 683 0.68 0.638888
Target:  5'- gCCUaCGGCGGCGccGGcc----GGGCCg -3'
miRNA:   3'- -GGA-GCCGCUGCuaCCuaaguuCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 2046 1.14 0.000541
Target:  5'- gCCUCGGCGACGAUGGAUUCAAGGGCCu -3'
miRNA:   3'- -GGAGCCGCUGCUACCUAAGUUCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 4612 0.81 0.115104
Target:  5'- gCCUCGGCGAUGAUgucggcggGGAUgcu-GGGCCa -3'
miRNA:   3'- -GGAGCCGCUGCUA--------CCUAaguuCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 5474 0.68 0.627748
Target:  5'- gCCgCGGuCGuuGAUGGucuggUCGAGGuGCCa -3'
miRNA:   3'- -GGaGCC-GCugCUACCua---AGUUCC-CGG- -5'
26726 3' -54.1 NC_005808.1 + 6842 0.71 0.455949
Target:  5'- cCCUCGGCGACGGccuuUUCGuaGGCCc -3'
miRNA:   3'- -GGAGCCGCUGCUaccuAAGUucCCGG- -5'
26726 3' -54.1 NC_005808.1 + 7144 0.7 0.48655
Target:  5'- uCgUCGGCuGCGGccUGGAUgaccAGGGCCg -3'
miRNA:   3'- -GgAGCCGcUGCU--ACCUAagu-UCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 7594 0.74 0.289934
Target:  5'- uCgUCGGCGACGGUGGAcagCAcGuGGUCg -3'
miRNA:   3'- -GgAGCCGCUGCUACCUaa-GUuC-CCGG- -5'
26726 3' -54.1 NC_005808.1 + 8241 0.68 0.638888
Target:  5'- cCCUCGuCGGCGAagucgcUGGAaucauccgggcaUUCGgcuuccAGGGCCa -3'
miRNA:   3'- -GGAGCcGCUGCU------ACCU------------AAGU------UCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 8447 0.68 0.616612
Target:  5'- -aUCGGCG-CGAUgucGGcgUCGAGGugGCCu -3'
miRNA:   3'- ggAGCCGCuGCUA---CCuaAGUUCC--CGG- -5'
26726 3' -54.1 NC_005808.1 + 8625 0.68 0.650022
Target:  5'- uUCUCGGCcgcuGCGGUGGcgaggUCGccGGCCu -3'
miRNA:   3'- -GGAGCCGc---UGCUACCua---AGUucCCGG- -5'
26726 3' -54.1 NC_005808.1 + 9480 0.67 0.670013
Target:  5'- --aCGGCGACauucagggccuUGGGUUCAuGGGCg -3'
miRNA:   3'- ggaGCCGCUGcu---------ACCUAAGUuCCCGg -5'
26726 3' -54.1 NC_005808.1 + 10242 0.71 0.455949
Target:  5'- gCCUCGGCGGCGAccgcagcgaccUGGGcggcgguugUCGGGacgccGGCCu -3'
miRNA:   3'- -GGAGCCGCUGCU-----------ACCUa--------AGUUC-----CCGG- -5'
26726 3' -54.1 NC_005808.1 + 10458 0.73 0.345082
Target:  5'- gUUCGGCcuUGAgGGAUUCGGGGGCg -3'
miRNA:   3'- gGAGCCGcuGCUaCCUAAGUUCCCGg -5'
26726 3' -54.1 NC_005808.1 + 10769 0.69 0.583326
Target:  5'- uCgUCGGUGAgGGUGcgcaGGUUCAuGGGCUu -3'
miRNA:   3'- -GgAGCCGCUgCUAC----CUAAGUuCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 11385 0.73 0.353549
Target:  5'- aCCUCGGUGGCGAccugaUGGg--CcAGGGUCu -3'
miRNA:   3'- -GGAGCCGCUGCU-----ACCuaaGuUCCCGG- -5'
26726 3' -54.1 NC_005808.1 + 12544 0.69 0.550412
Target:  5'- aCCUCGGCGuCGGUGaauUUCuugccGGCCu -3'
miRNA:   3'- -GGAGCCGCuGCUACcu-AAGuuc--CCGG- -5'
26726 3' -54.1 NC_005808.1 + 14389 0.68 0.650022
Target:  5'- uCgUCGGCGugGccgaccUGGA--CAAGGcGCCg -3'
miRNA:   3'- -GgAGCCGCugCu-----ACCUaaGUUCC-CGG- -5'
26726 3' -54.1 NC_005808.1 + 14815 0.67 0.672228
Target:  5'- aCCUCGGCGGCGcUGccUUCGcccAGGucgauGCCg -3'
miRNA:   3'- -GGAGCCGCUGCuACcuAAGU---UCC-----CGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.